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Related papers: Steering Protein Language Models

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Precise attribute intensity control--generating Large Language Model (LLM) outputs with specific, user-defined attribute intensities--is crucial for AI systems adaptable to diverse user expectations. Current LLM alignment methods, however,…

Artificial Intelligence · Computer Science 2026-02-19 Rongzhi Zhang , Liqin Ye , Yuzhao Heng , Xiang Chen , Tong Yu , Lingkai Kong , Sudheer Chava , Chao Zhang

Prior work on controllable text generation has focused on learning how to control language models through trainable decoding, smart-prompt design, or fine-tuning based on a desired objective. We hypothesize that the information needed to…

Computation and Language · Computer Science 2022-05-12 Nishant Subramani , Nivedita Suresh , Matthew E. Peters

Prompt engineering is a new paradigm for enhancing the performance of trained neural network models. For optimizing text-style prompts, existing methods usually individually operate small portions of a text step by step, which either breaks…

Computation and Language · Computer Science 2023-10-03 Yujian Betterest Li , Kai Wu

The widespread application of pre-trained language models (PLMs) in natural language processing (NLP) has led to increasing concerns about their explainability. Selective rationalization is a self-explanatory framework that selects…

Computation and Language · Computer Science 2025-01-07 Libing Yuan , Shuaibo Hu , Kui Yu , Le Wu

Deploying LLMs in real-world applications requires controllable output that satisfies multiple desiderata at the same time. While existing work extensively addresses LLM steering for a single behavior, \textit{compositional steering} --…

Computation and Language · Computer Science 2026-04-21 Gorjan Radevski , Kiril Gashteovski , Giwon Hong , Carolin Lawrence , Goran Glavaš

Activation steering methods in large language models (LLMs) have emerged as an effective way to perform targeted updates to enhance generated language without requiring large amounts of adaptation data. We ask whether the features…

Computation and Language · Computer Science 2025-11-05 Masha Fedzechkina , Eleonora Gualdoni , Sinead Williamson , Katherine Metcalf , Skyler Seto , Barry-John Theobald

Reparameterized diffusion models (RDMs) have recently matched autoregressive methods in protein generation, motivating their use for challenging tasks such as designing membrane proteins, which possess interleaved soluble and transmembrane…

Biomolecules · Quantitative Biology 2025-09-30 Shrey Goel , Peregrine M. Schray , Yinuo Zhang , Sophia Vincoff , Huong T. Kratochvil , Pranam Chatterjee

Large language models (LLMs) are able to generate grammatically well-formed text, but how do they encode their syntactic knowledge internally? While prior work has focused largely on binary grammatical contrasts, in this work, we study the…

Computation and Language · Computer Science 2025-09-16 Alina Klerings , Jannik Brinkmann , Daniel Ruffinelli , Simone Ponzetto

Large language models (LLMs) are increasingly tasked with generating structured outputs. While structured generation methods ensure validity, they often lack output diversity, a critical limitation that we confirm in our preliminary study.…

Computation and Language · Computer Science 2025-11-17 Xiaokun Luan , Zeming Wei , Yihao Zhang , Meng Sun

Large language models (LLMs) have shown promise in synthetic tabular data generation, yet existing methods struggle to preserve complex feature dependencies, particularly among categorical variables. This work introduces a…

Machine Learning · Computer Science 2025-05-07 Andrey Sidorenko

Fine-tuning large language models (LLMs) to adapt to evolving safety policies is costly and impractical. Mechanistic interpretability enables inference-time control through latent activation steering, yet its potential for precise,…

Machine Learning · Computer Science 2025-06-06 Shaona Ghosh , Amrita Bhattacharjee , Yftah Ziser , Christopher Parisien

Aligning large language models (LLMs) with human preferences is essential for safe and useful LLMs. Previous works mainly adopt reinforcement learning (RLHF) and direct preference optimization (DPO) with human feedback for alignment.…

Computation and Language · Computer Science 2023-10-03 Tianci Xue , Ziqi Wang , Heng Ji

Large Language Models (LLMs) are revolutionizing bioinformatics, enabling advanced analysis of DNA, RNA, proteins, and single-cell data. This survey provides a systematic review of recent advancements, focusing on genomic sequence modeling,…

Computation and Language · Computer Science 2026-03-03 Zhenyu Wang , Zikang Wang , Jiyue Jiang , Pengan Chen , Xiangyu Shi , Yu Li

Steering vectors have emerged as a lightweight and effective approach for aligning large language models (LLMs) at inference time, enabling modulation over model behaviors by shifting LLM representations towards a target behavior. However,…

Machine Learning · Computer Science 2026-04-07 Soham Gadgil , Chris Lin , Su-In Lee

Large language models (LLMs) hold promise for generating plans for complex tasks, but their effectiveness is limited by sequential execution, lack of control flow models, and difficulties in skill retrieval. Addressing these issues is…

Computation and Language · Computer Science 2024-10-18 Andrei Cosmin Redis , Mohammadreza Fani Sani , Bahram Zarrin , Andrea Burattin

Prompt engineering has emerged as an indispensable technique for extending the capabilities of large language models (LLMs) and vision-language models (VLMs). This approach leverages task-specific instructions, known as prompts, to enhance…

Artificial Intelligence · Computer Science 2025-03-18 Pranab Sahoo , Ayush Kumar Singh , Sriparna Saha , Vinija Jain , Samrat Mondal , Aman Chadha

Unlike the predictable scaling laws in natural language processing and computer vision, protein language models (PLMs) scale poorly: for many tasks, models within the same family plateau or even decrease in performance, with mid-sized…

Machine Learning · Computer Science 2026-03-10 Darius Catrina , Christian Bepler , Samuel Sledzieski , Rohit Singh

While test-time reasoning enables language models (LMs) to tackle complex tasks, searching or planning in natural language can be slow, costly, and error-prone. But even when LMs struggle to emulate the precise reasoning steps needed to…

Computation and Language · Computer Science 2025-08-11 Gabriel Grand , Joshua B. Tenenbaum , Vikash K. Mansinghka , Alexander K. Lew , Jacob Andreas

Recent work has demonstrated the potential of contrastive steering for jailbreaking Large Language Models (LLMs). However, existing methods rely on limited and inherently biased contrastive prompts and require laborious manual tuning of…

Cryptography and Security · Computer Science 2026-05-21 Junxi Chen , Junhao Dong , Xiaohua Xie

In the realm of Business Process Management (BPM), process modeling plays a crucial role in translating complex process dynamics into comprehensible visual representations, facilitating the understanding, analysis, improvement, and…

Software Engineering · Computer Science 2024-07-01 Humam Kourani , Alessandro Berti , Daniel Schuster , Wil M. P. van der Aalst